Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 137 of 325
Found at i:42786059 original size:170 final size:171
Alignment explanation
Indices: 42785776--42786105 Score: 583
Period size: 170 Copynumber: 1.9 Consensus size: 171
42785766 CTTCCCATGG
* * *
42785776 TTTTTTTCCCTAAAGGGTTTCCACGTAAAAATCTGTGTGTTCTTTATTTTATTTTATTTTTATTT
1 TTTTTTTCCCGAAAGGGTTTCCACATAAAAATCTGTGTGTTCTTTATTTTATTTTATTATTATTT
42785841 TATTTTATTTTATTTTCACAACTACCATGATCAAAAAGTTCTCCAAGTGGACTAGACGAGTTTGT
66 TATTTTATTTTATTTTCACAACTACCATGATCAAAAAGTTCTCCAAGTGGACTAGACGAGTTTGT
*
42785906 TCTGCGGGCTTGTTTCCCAT-TGATGGCATCTCTGCCCTTGA
131 TCTGCGGACTTGTTTCCCATCT-ATGGCATCTCTGCCCTTGA
42785947 TTTTTTTCCCGAAAGGGTTTCCACATAAAAATCTGTGTGTTCTTTATTTTATTTT-TTATTATTT
1 TTTTTTTCCCGAAAGGGTTTCCACATAAAAATCTGTGTGTTCTTTATTTTATTTTATTATTATTT
*
42786011 TATTTTATTTTATTTTCACAACTACCATGATCAAAAAGTTCTCCAAGTGGACTAGAGGAGTTTGT
66 TATTTTATTTTATTTTCACAACTACCATGATCAAAAAGTTCTCCAAGTGGACTAGACGAGTTTGT
*
42786076 TCTTCGGACTTGTTTCCCATCTATGGCATC
131 TCTGCGGACTTGTTTCCCATCTATGGCATC
42786106 AAATGTCTAG
Statistics
Matches: 152, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
170 98 0.64
171 54 0.36
ACGTcount: A:0.23, C:0.18, G:0.15, T:0.45
Consensus pattern (171 bp):
TTTTTTTCCCGAAAGGGTTTCCACATAAAAATCTGTGTGTTCTTTATTTTATTTTATTATTATTT
TATTTTATTTTATTTTCACAACTACCATGATCAAAAAGTTCTCCAAGTGGACTAGACGAGTTTGT
TCTGCGGACTTGTTTCCCATCTATGGCATCTCTGCCCTTGA
Found at i:42788828 original size:30 final size:30
Alignment explanation
Indices: 42788784--42788846 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
42788774 ACTTAACAAT
*
42788784 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATATCTCTAAAATAATAACAAAATTAA
*
42788814 CAAATATCTTTAAAATAATAACAAAATTAA
1 CAAATATCTCTAAAATAATAACAAAATTAA
42788844 CAA
1 CAA
42788847 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.59, C:0.13, G:0.02, T:0.27
Consensus pattern (30 bp):
CAAATATCTCTAAAATAATAACAAAATTAA
Found at i:42808234 original size:21 final size:21
Alignment explanation
Indices: 42808210--42808249 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
42808200 CTCTCAAATT
42808210 TCTC-TCAATTTTTGTCAAAGC
1 TCTCTTCAATTTTTG-CAAAGC
*
42808231 TCTCTTTAATTTTTGCAAA
1 TCTCTTCAATTTTTGCAAA
42808250 AAAGATCTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.47
Consensus pattern (21 bp):
TCTCTTCAATTTTTGCAAAGC
Found at i:42809411 original size:7 final size:7
Alignment explanation
Indices: 42809396--42809434 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
42809386 AATCGTTTCA
42809396 TATTTAG
1 TATTTAG
*
42809403 TAGTTAG
1 TATTTAG
42809410 TATTTAG
1 TATTTAG
*
42809417 TATTTAT
1 TATTTAG
42809424 TATTTAG
1 TATTTAG
42809431 TATT
1 TATT
42809435 ACGTATATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.28, C:0.00, G:0.13, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:42810048 original size:18 final size:18
Alignment explanation
Indices: 42810025--42810065 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
42810015 TCAGGTGCGC
*
42810025 ATCCTAGCCCTTATATGT
1 ATCCTAACCCTTATATGT
*
42810043 ATCCTAACCCTTTTATGT
1 ATCCTAACCCTTATATGT
*
42810061 TTCCT
1 ATCCT
42810066 TTTCCCAGTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.29, G:0.07, T:0.44
Consensus pattern (18 bp):
ATCCTAACCCTTATATGT
Found at i:42810347 original size:21 final size:21
Alignment explanation
Indices: 42810321--42810367 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
42810311 AGATCCCCTT
* *
42810321 CCGGAGGAATCACAATCCCCA
1 CCGGAGCAACCACAATCCCCA
*
42810342 CCGGAGCAACCACAATCCCCG
1 CCGGAGCAACCACAATCCCCA
42810363 CCGGA
1 CCGGA
42810368 AGCTGAACCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.43, G:0.21, T:0.06
Consensus pattern (21 bp):
CCGGAGCAACCACAATCCCCA
Found at i:42810714 original size:130 final size:129
Alignment explanation
Indices: 42810473--42810845 Score: 599
Period size: 129 Copynumber: 2.9 Consensus size: 129
42810463 GTAGAAACTT
42810473 TTTTTATATAGTTTC-ATATAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTAC--T
1 TTTTTATATAGTTTCAAT-TAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
* **
42810535 TTTTAATTTTATTAAAACAAATGTTCTTTTAAATTAGGTAATATTTTTTTATCATTTTTATATTT
65 TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATA--TTTTTATCATTTTTATATTT
42810600 AA
128 AA
42810602 CTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
1 -TTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
*
42810667 TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTATTTTTATATTTAA
65 TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATCATTTTTATATTTAA
* * * *
42810732 TTTTTATATATTTTTAATTAATAAAATAAAATTTGTTTTTAATATTTTAATTGTACTTTACTTAT
1 TTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTTT
* *
42810797 TTTAATTTTAATACAATAAATGTTCTTTTAAATTAGCCAATATTTTTAT
66 TTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTAT
42810846 TAAAAAAATG
Statistics
Matches: 230, Mismatches: 10, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
129 108 0.47
130 79 0.34
131 2 0.01
132 41 0.18
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (129 bp):
TTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTTT
TTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATCATTTTTATATTTAA
Found at i:42810748 original size:17 final size:17
Alignment explanation
Indices: 42810707--42810751 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
42810697 AAATTAGCCA
42810707 ATATTTTT-ATTATTTT
1 ATATTTTTAATTATTTT
*
42810723 -TATATTTAATT-TTTAT
1 ATATTTTTAATTATTT-T
42810739 ATATTTTTAATTA
1 ATATTTTTAATTA
42810752 ATAAAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
15 9 0.39
16 4 0.17
17 10 0.43
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATATTTTTAATTATTTT
Found at i:42818758 original size:17 final size:17
Alignment explanation
Indices: 42818736--42818768 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
42818726 CACGGCCTAG
42818736 GCTCTGTCACACAGCCA
1 GCTCTGTCACACAGCCA
42818753 GCTCTGTCACACAGCC
1 GCTCTGTCACACAGCC
42818769 TGACCACATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.42, G:0.18, T:0.18
Consensus pattern (17 bp):
GCTCTGTCACACAGCCA
Found at i:42819221 original size:30 final size:29
Alignment explanation
Indices: 42819187--42819273 Score: 68
Period size: 30 Copynumber: 2.9 Consensus size: 29
42819177 AGAAGTAAAA
*
42819187 CTAAATCGATAGAATATGTAAAGTTGAGGG
1 CTAAAT-GATAGAATATGTAAAGTTGAAGG
* * * * *
42819217 CTAAAGTTATTGAATTTTTTAAAATT-AAGG
1 CTAAA-TGATAGAA-TATGTAAAGTTGAAGG
*
42819247 CTAAATTGATAGAATGTGTAAAGTTGA
1 CTAAA-TGATAGAATATGTAAAGTTGA
42819274 TGATTGAATT
Statistics
Matches: 42, Mismatches: 12, Indels: 6
0.70 0.20 0.10
Matches are distributed among these distances:
29 8 0.19
30 25 0.60
31 9 0.21
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.34
Consensus pattern (29 bp):
CTAAATGATAGAATATGTAAAGTTGAAGG
Found at i:42819267 original size:60 final size:60
Alignment explanation
Indices: 42819171--42819321 Score: 176
Period size: 60 Copynumber: 2.5 Consensus size: 60
42819161 TCCTTTTAAG
* * * *
42819171 TTTTTAAGAAGTAAAACTAAATCGATAGAATATGTAAAGTTGAGGGCTAAAGTTATTGAAT
1 TTTTTAA-AATTAAAACTAAATTGATAGAATATGTAAAGTTGAGGACTAAAGTTATTAAAT
** * * * * *
42819232 TTTTTAAAATTAAGGCTAAATTGATAGAATGTGTAAAGTTGATGATTGAATTTATTAAAT
1 TTTTTAAAATTAAAACTAAATTGATAGAATATGTAAAGTTGAGGACTAAAGTTATTAAAT
* *
42819292 TTTTTAGAATTAAAACTAAATTAATAGAAT
1 TTTTTAAAATTAAAACTAAATTGATAGAAT
42819322 TTATAAATAT
Statistics
Matches: 75, Mismatches: 15, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
60 68 0.91
61 7 0.09
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (60 bp):
TTTTTAAAATTAAAACTAAATTGATAGAATATGTAAAGTTGAGGACTAAAGTTATTAAAT
Found at i:42820588 original size:16 final size:16
Alignment explanation
Indices: 42820550--42820581 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
42820540 AGCTACTTTT
42820550 AAGTTGAGCTTTACAG
1 AAGTTGAGCTTTACAG
42820566 AAGTTGAGCTTTACAG
1 AAGTTGAGCTTTACAG
42820582 GGTTTGACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.31
Consensus pattern (16 bp):
AAGTTGAGCTTTACAG
Found at i:42833011 original size:50 final size:52
Alignment explanation
Indices: 42832934--42833062 Score: 203
Period size: 50 Copynumber: 2.6 Consensus size: 52
42832924 GACCATGGCA
*
42832934 ACAAGTGATAAGTGA-TAGCTTCGGCTACACTTATCTGATCAAAGACAAGTG
1 ACAAGTGATAAGTGAGTAGCTTCGGCTACACTTATCTGATCAAAGACAAATG
*
42832985 A-AAGTGATAAGTGAGT-GCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTGAGTAGCTTCGGCTACACTTATCTGATCAAAGACAAATG
*
42833035 ACAAGTGAAAAGTG-GTAGCTTCGGCTAC
1 ACAAGTGATAAGTGAGTAGCTTCGGCTAC
42833063 CTGATCAGTG
Statistics
Matches: 72, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
50 48 0.67
51 24 0.33
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (52 bp):
ACAAGTGATAAGTGAGTAGCTTCGGCTACACTTATCTGATCAAAGACAAATG
Found at i:42833076 original size:31 final size:31
Alignment explanation
Indices: 42833038--42833186 Score: 226
Period size: 31 Copynumber: 4.8 Consensus size: 31
42833028 ACAAATGACA
42833038 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
42833069 AGTGAAAAGTGGTAGCTTCTGCTACCTCATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
42833100 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * * *
42833131 ATTGAAAAATGGTAGCTCCGGCTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
42833162 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
42833187 AAGTGACAAG
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 106 1.00
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:42833294 original size:48 final size:49
Alignment explanation
Indices: 42833239--42833344 Score: 178
Period size: 49 Copynumber: 2.2 Consensus size: 49
42833229 GCATCAGTGA
*
42833239 GATATGTGATT-CGTGTAAGACCATAGCTGAGCTATGGCATCGATATGT
1 GATATGTGATTACGTGTAAGACCATAGCTGAGCTATGGCATCGATATAT
*
42833287 GATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATAT
1 GATATGTGATTACGTGTAAGACCATAGCTGAGCTATGGCATCGATATAT
42833336 GAATATGTG
1 G-ATATGTG
42833345 TAATACCATA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
48 11 0.20
49 36 0.67
50 7 0.13
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.31
Consensus pattern (49 bp):
GATATGTGATTACGTGTAAGACCATAGCTGAGCTATGGCATCGATATAT
Found at i:42833346 original size:42 final size:43
Alignment explanation
Indices: 42833251--42833414 Score: 145
Period size: 42 Copynumber: 3.7 Consensus size: 43
42833241 TATGTGATTC
* * *
42833251 GTGTAAGACCATAGCTGAGCTATGGCATCGATATGTGATATG-TGATT
1 GTGTAAAACCATAGCTGGGCTATGGCATCG--AT-T-ATATGAAGA-T
* *
42833298 ACGTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 --GTGTAAAACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* * *
42833342 GTGTAATACCATAGCTGGGCTATGGCGTC-ATTATGTGAAGAT
1 GTGTAAAACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
42833384 GTGTAAAACCATAGTTGAACTATGGCATCGA
1 GTGTAAAACCATAGCTGGGCTATGGCATCGA
42833415 GAAAACGAAG
Statistics
Matches: 100, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
41 1 0.01
42 60 0.60
43 1 0.01
44 6 0.06
45 2 0.02
47 1 0.01
49 29 0.29
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (43 bp):
GTGTAAAACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:42834485 original size:3 final size:3
Alignment explanation
Indices: 42834477--42834501 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
42834467 AAATTGAGTA
42834477 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
42834502 TTATTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:42843161 original size:19 final size:19
Alignment explanation
Indices: 42843137--42843180 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
42843127 TAATATATAT
*
42843137 TAATATTTTTTTATCAAAA
1 TAATATTTATTTATCAAAA
*
42843156 TAATATTTATTTATTAAAA
1 TAATATTTATTTATCAAAA
*
42843175 TGATAT
1 TAATAT
42843181 GTTTACTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (19 bp):
TAATATTTATTTATCAAAA
Found at i:42843925 original size:23 final size:23
Alignment explanation
Indices: 42843889--42843946 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
42843879 TTTTTATTAG
** * *
42843889 TGAAAATTAATTGTTTACTTACT
1 TGAAAATTGTTTGTTTAATTAAT
* *
42843912 TGTAATTTGTTTGTTTAATTAAT
1 TGAAAATTGTTTGTTTAATTAAT
42843935 TGAAAATTGTTT
1 TGAAAATTGTTT
42843947 ATTTTATAAG
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.12, T:0.53
Consensus pattern (23 bp):
TGAAAATTGTTTGTTTAATTAAT
Found at i:42855947 original size:12 final size:12
Alignment explanation
Indices: 42855930--42855956 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
42855920 TATTTTGAAG
42855930 TTTAAAAATTAT
1 TTTAAAAATTAT
42855942 TTTAAAAATTAT
1 TTTAAAAATTAT
42855954 TTT
1 TTT
42855957 GATTTATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TTTAAAAATTAT
Found at i:42866661 original size:5 final size:5
Alignment explanation
Indices: 42866651--42866711 Score: 52
Period size: 5 Copynumber: 11.4 Consensus size: 5
42866641 TTATTCTACA
* *
42866651 AAAAT AAAAT -AAAT AAAATAT AAAAT AAACTT GAACAAA AAAAT AAAAT
1 AAAAT AAAAT AAAAT -AAA-AT AAAAT AAA-AT -AA-AAT AAAAT AAAAT
42866700 AAAAT AAAAT AA
1 AAAAT AAAAT AA
42866712 TGATAAATTC
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
4 4 0.09
5 29 0.63
6 8 0.17
7 4 0.09
8 1 0.02
ACGTcount: A:0.75, C:0.03, G:0.02, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:42869827 original size:55 final size:53
Alignment explanation
Indices: 42869637--42869891 Score: 236
Period size: 55 Copynumber: 4.8 Consensus size: 53
42869627 ACACGAGTAC
* * * * *
42869637 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* *
42869686 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
* * *
42869739 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AA
* ***
42869794 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* * * *
42869847 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTT
42869892 AAACCTTAAT
Statistics
Matches: 173, Mismatches: 22, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
49 38 0.22
50 1 0.01
52 2 0.01
53 49 0.28
54 10 0.06
55 71 0.41
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
Found at i:42869828 original size:108 final size:110
Alignment explanation
Indices: 42869684--42869881 Score: 321
Period size: 108 Copynumber: 1.8 Consensus size: 110
42869674 ATCCTTTTGA
* *
42869684 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
42869747 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
42869792 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
42869857 TGCCATGCCTTGGCATGGTCTTACA
66 TGCCATGCCTTGGCATGGTCTTACA
42869882 CGGTATCCTT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.60
109 7 0.09
110 25 0.30
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:42876993 original size:16 final size:16
Alignment explanation
Indices: 42876974--42877004 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42876964 CTTCTTCACT
42876974 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
42876990 TACTTACTTACTTAA
1 TACTCACTTACTTAA
42877005 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:42877010 original size:20 final size:20
Alignment explanation
Indices: 42876971--42877010 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
42876961 AAACTTCTTC
* *
42876971 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
42876991 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
42877011 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:42877401 original size:55 final size:53
Alignment explanation
Indices: 42877200--42877453 Score: 229
Period size: 55 Copynumber: 4.8 Consensus size: 53
42877190 ACACGGGTAC
* * * * *
42877200 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTT---TT-GA-AA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACAT-GTATCCTTGCCTTATAGAA
*
42877249 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACAT-GTATCCTTGCCTTATAGAA
* * *
42877302 CTCACCAATGCCATG-CTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACAT-GTATCC-TTGCCTTATAG-AA
* * *
42877356 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGA-AA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATG-TATCCTTGCCTTATAGAA
* * *
42877409 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACA-TGTATCCTT
42877454 AAACCCTAAT
Statistics
Matches: 172, Mismatches: 19, Indels: 22
0.81 0.09 0.10
Matches are distributed among these distances:
49 40 0.23
51 2 0.01
52 31 0.18
53 18 0.10
54 23 0.13
55 55 0.32
56 3 0.02
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGTATCCTTGCCTTATAGAA
Found at i:42884227 original size:23 final size:25
Alignment explanation
Indices: 42884200--42884254 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
42884190 AATATTTACG
*
42884200 AAGTTAAGTG-AGTG-ATTAATTTA
1 AAGTTAAGTGAAGTGAATTAACTTA
42884223 AAGTTTAA-TGAAGTGAATTAACTTA
1 AAG-TTAAGTGAAGTGAATTAACTTA
42884248 AA-TTAAG
1 AAGTTAAG
42884255 GATAATTAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
23 9 0.33
24 8 0.30
25 10 0.37
ACGTcount: A:0.44, C:0.02, G:0.18, T:0.36
Consensus pattern (25 bp):
AAGTTAAGTGAAGTGAATTAACTTA
Found at i:42884712 original size:17 final size:19
Alignment explanation
Indices: 42884692--42884729 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
42884682 CATGGGAAGG
42884692 AAGAAAG-A-AAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
42884709 AAGAAAGAAGAAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
42884728 AA
1 AA
42884730 TTAAAGGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 1 0.05
19 11 0.58
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (19 bp):
AAGAAAGAAGAAAAGAGAA
Found at i:42886014 original size:40 final size:40
Alignment explanation
Indices: 42885953--42886048 Score: 165
Period size: 40 Copynumber: 2.4 Consensus size: 40
42885943 CAATATTCTA
*
42885953 TTATTTTATGTTAATTTTGTTAATTGCCAGCATGTGTATAT
1 TTATTTTATG-AAATTTTGTTAATTGCCAGCATGTGTATAT
*
42885994 TTATTTTATGAAATTTTGTTAATTTCCAGCATGTGTATAT
1 TTATTTTATGAAATTTTGTTAATTGCCAGCATGTGTATAT
42886034 TTATTTTATGAAATT
1 TTATTTTATGAAATT
42886049 ATTCAAAAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
40 43 0.81
41 10 0.19
ACGTcount: A:0.27, C:0.06, G:0.12, T:0.54
Consensus pattern (40 bp):
TTATTTTATGAAATTTTGTTAATTGCCAGCATGTGTATAT
Found at i:42886239 original size:55 final size:53
Alignment explanation
Indices: 42886152--42886395 Score: 212
Period size: 55 Copynumber: 4.6 Consensus size: 53
42886142 ATTAGGGTTT
*
42886152 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTTCTAAGGC
* * ** * * *
42886207 AAGGAAATCATGTAAGACCATGTTAAGACATGGCATTGATAAGTTACTATAAGTC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TCTAAGGC
* * * *
42886262 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-ATCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-TAAGGC
* * * *
42886315 AAGGATACCATGTAAGACCATGTCGAGACATGACAATGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
* * * *
42886364 AAGGATACCACGTAAAACCATGACAAGTCATG
1 AAGGATACCATGTAAGACCATGCCAAGACATG
42886396 AAAATGGTAA
Statistics
Matches: 151, Mismatches: 32, Indels: 18
0.75 0.16 0.09
Matches are distributed among these distances:
49 27 0.18
52 7 0.05
53 39 0.26
54 9 0.06
55 65 0.43
56 4 0.03
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
Found at i:42886358 original size:108 final size:110
Alignment explanation
Indices: 42886159--42886359 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
42886149 TTTAAGGATA
* *
42886159 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTATCTAAGGCAAGGAAACCATGTAAGA
* * *
42886224 CCATGTTAAGACATGGCATTGATAAGTTACTATAAGTCAAAGGTC
66 CCATGTCAAGACATGACAATGATAAGTTACTATAAGTCAAAGGTC
* *
42886269 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-ATCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTATC-TAAGGCAAGGAAACCATGTAAG
* *
42886331 ACCATGTCGAGACATGACAATGGTAAGTT
65 ACCATGTCAAGACATGACAATGATAAGTT
42886360 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 2 0.02
108 45 0.56
109 7 0.09
110 27 0.33
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTATCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGACAATGATAAGTTACTATAAGTCAAAGGTC
Found at i:42886619 original size:16 final size:16
Alignment explanation
Indices: 42886598--42886628 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42886588 ATAAATTTGA
42886598 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
42886614 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
42886629 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:42888565 original size:6 final size:6
Alignment explanation
Indices: 42888550--42888582 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
42888540 GTACTTTATG
*
42888550 TACTGC TACTGT TACTGT TACTGT TACTGT TAC
1 TACTGT TACTGT TACTGT TACTGT TACTGT TAC
42888583 CCTTACAGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.45
Consensus pattern (6 bp):
TACTGT
Found at i:42888588 original size:18 final size:18
Alignment explanation
Indices: 42888550--42888588 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
42888540 GTACTTTATG
**
42888550 TACTGCTACTGTTACTGT
1 TACTGCTACTGTTACCCT
*
42888568 TACTGTTACTGTTACCCT
1 TACTGCTACTGTTACCCT
42888586 TAC
1 TAC
42888589 AGTGTATTCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.18, C:0.26, G:0.13, T:0.44
Consensus pattern (18 bp):
TACTGCTACTGTTACCCT
Found at i:42891370 original size:21 final size:22
Alignment explanation
Indices: 42891342--42891392 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
42891332 CTTACAGCAT
*
42891342 GGGCGTGT-CCTCGGACCACAC
1 GGGCGTGTCCCTCAGACCACAC
*
42891363 GGGTGTGTCCCTCAGACCACAC
1 GGGCGTGTCCCTCAGACCACAC
42891385 GGGCGTGT
1 GGGCGTGT
42891393 GAGCCCTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 7 0.27
22 19 0.73
ACGTcount: A:0.14, C:0.33, G:0.35, T:0.18
Consensus pattern (22 bp):
GGGCGTGTCCCTCAGACCACAC
Found at i:42897222 original size:45 final size:47
Alignment explanation
Indices: 42897028--42897290 Score: 176
Period size: 46 Copynumber: 5.7 Consensus size: 47
42897018 GTTGATGCTG
** *
42897028 TGTCCCAGACA-GGTCTTACACT-G-ACACATAT-CAAGCCGATGCCA
1 TGTCCCAGACATGGTCTTACACTAGCACACATATCCGTGCTGATG-CA
* * *
42897072 TGTCCCAGGCATGGTCTTACACTAGCTTTCAC-GAT--GTGGCTGATGCA
1 TGTCCCAGACATGGTCTTACACTAGC--ACACATATCCGT-GCTGATGCA
* * *
42897119 TGTCCCAGACA-AGTCTTACACTAGCACATATATCCGTGCCGATGCCA
1 TGTCCCAGACATGGTCTTACACTAGCACACATATCCGTGCTGATG-CA
* *
42897166 TGTCCCAGACATGGTCTTACA-TTG-ACACATCT-CGTAGCTGATGCA
1 TGTCCCAGACATGGTCTTACACTAGCACACATATCCGT-GCTGATGCA
* * * ** * * * *
42897211 TGTCCTAGACAT-GTTTTACACTGGCTTACGT-CCCGAGGTTGATGCA
1 TGTCCCAGACATGGTCTTACACTAGCACACATATCCG-TGCTGATGCA
*
42897257 TGTCCCAGACAT-GTCTTACACTGGCACACATATC
1 TGTCCCAGACATGGTCTTACACTAGCACACATATC
42897291 ACTTGCACTG
Statistics
Matches: 170, Mismatches: 32, Indels: 31
0.73 0.14 0.13
Matches are distributed among these distances:
44 19 0.11
45 31 0.18
46 71 0.42
47 30 0.18
48 16 0.09
49 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (47 bp):
TGTCCCAGACATGGTCTTACACTAGCACACATATCCGTGCTGATGCA
Found at i:42906135 original size:17 final size:17
Alignment explanation
Indices: 42906113--42906145 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
42906103 TCTCTTCACT
42906113 TTAGTTTAATTAATTAA
1 TTAGTTTAATTAATTAA
*
42906130 TTAGTTTAGTTAATTA
1 TTAGTTTAATTAATTA
42906146 GTTTAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (17 bp):
TTAGTTTAATTAATTAA
Found at i:42906144 original size:13 final size:13
Alignment explanation
Indices: 42906126--42906150 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42906116 GTTTAATTAA
42906126 TTAATTAGTTTAG
1 TTAATTAGTTTAG
42906139 TTAATTAGTTTA
1 TTAATTAGTTTA
42906151 ATAAACAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTAATTAGTTTAG
Found at i:42914399 original size:22 final size:22
Alignment explanation
Indices: 42914374--42914416 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
42914364 TTCTCTTCAC
42914374 TTTAGTTTAATTAG-TTAATAAG
1 TTTAG-TTAATTAGTTTAATAAG
42914396 TTTAGTTAATTAGTTTAATAA
1 TTTAGTTAATTAGTTTAATAA
42914417 ACAACCCCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TTTAGTTAATTAGTTTAATAAG
Found at i:42917409 original size:16 final size:17
Alignment explanation
Indices: 42917390--42917423 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
42917380 AAATATTATG
*
42917390 AAATAATAAT-AAACAA
1 AAATAAAAATCAAACAA
42917406 AAATAAAAATCAAACAA
1 AAATAAAAATCAAACAA
42917423 A
1 A
42917424 CGTCATCCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (17 bp):
AAATAAAAATCAAACAA
Found at i:42919438 original size:27 final size:27
Alignment explanation
Indices: 42919407--42919584 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
42919397 TAAATTGTAC
42919407 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
42919434 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
42919460 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
42919488 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
42919516 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
42919543 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
**
42919570 AGCACCGAGTGTGCG
1 AGCACTAAGTGTGCG
42919585 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:42919521 original size:82 final size:81
Alignment explanation
Indices: 42919408--42919563 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
42919398 AAATTGTACA
* *
42919408 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
42919472 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
42919489 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
42919554 TGCGAGTTGA
65 TGCGAATTGA
42919564 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:42919581 original size:82 final size:81
Alignment explanation
Indices: 42919404--42919584 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
42919394 GATTAAATTG
* * *
42919404 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACCAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
42919469 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
42919485 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACCAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
42919549 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
42919567 TATAGCACCGAGTGTGCG
1 TACAGCACCAAGTGTGCG
42919585 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACCAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:42931055 original size:29 final size:29
Alignment explanation
Indices: 42930988--42931055 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 29
42930978 ACCATAGCAT
42930988 CCTACAATTTTCATTTATTTCACAATTTAAC
1 CCTA-AATTTTCA-TTATTTCACAATTTAAC
* *
42931019 CATAAAATTTTCA-TATTTCTCAATTTAATC
1 CCT-AAATTTTCATTATTTCACAATTTAA-C
42931049 CCTAAAT
1 CCTAAAT
42931056 GACAATTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
29 18 0.56
30 3 0.09
31 10 0.31
32 1 0.03
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (29 bp):
CCTAAATTTTCATTATTTCACAATTTAAC
Found at i:42932552 original size:19 final size:19
Alignment explanation
Indices: 42932528--42932570 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
42932518 TAGGTACAAA
42932528 TTGTCGTGGCAAAATTTTC
1 TTGTCGTGGCAAAATTTTC
42932547 TTGTCGTGGCAAAATTTTC
1 TTGTCGTGGCAAAATTTTC
42932566 TTGTC
1 TTGTC
42932571 ATGCCAACAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.44
Consensus pattern (19 bp):
TTGTCGTGGCAAAATTTTC
Found at i:42938891 original size:13 final size:12
Alignment explanation
Indices: 42938860--42938893 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
42938850 ACACAAATTC
42938860 TCCTTCTTTTTT
1 TCCTTCTTTTTT
42938872 T-CTTCTTTTCTT
1 TCCTTCTTTT-TT
42938884 TCCTTCTTTT
1 TCCTTCTTTT
42938894 ATTAGGGTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 8 0.40
12 4 0.20
13 8 0.40
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TCCTTCTTTTTT
Found at i:42942572 original size:29 final size:30
Alignment explanation
Indices: 42942539--42942596 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
42942529 AATTATTCAT
42942539 ATTTAATAATATAATAAATTA-TTAATATA
1 ATTTAATAATATAATAAATTATTTAATATA
* *
42942568 ATTTAATATTTTAATAAATTATTTAATAT
1 ATTTAATAATATAATAAATTATTTAATAT
42942597 TATAATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 19 0.73
30 7 0.27
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (30 bp):
ATTTAATAATATAATAAATTATTTAATATA
Found at i:42945728 original size:18 final size:18
Alignment explanation
Indices: 42945686--42945730 Score: 76
Period size: 17 Copynumber: 2.6 Consensus size: 18
42945676 GAAAAATGAG
42945686 AATTTTT-AAAACACGAA
1 AATTTTTGAAAACACGAA
42945703 AA-TTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
42945720 AATTTTTGAAA
1 AATTTTTGAAA
42945731 CCTGAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.15
17 14 0.54
18 8 0.31
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (18 bp):
AATTTTTGAAAACACGAA
Found at i:42946356 original size:15 final size:17
Alignment explanation
Indices: 42946336--42946367 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
42946326 TTAGGAAACG
42946336 TACATAA-A-AAATATA
1 TACATAATATAAATATA
42946351 TACATAATATAAATATA
1 TACATAATATAAATATA
42946368 ATATATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
TACATAATATAAATATA
Found at i:42948475 original size:72 final size:72
Alignment explanation
Indices: 42948255--42948979 Score: 950
Period size: 72 Copynumber: 9.8 Consensus size: 72
42948245 AGTGTGTGAT
* *
42948255 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAA-ACAGAAATTGAAATTACC
*
42948320 TCAGCATGTGAAC
63 TCAGC--GTG-TC
* * *
42948333 C-AAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAAATTGAAATTACCTC
*
42948397 AACGTGTC
65 AGCGTGTC
* ** *
42948405 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCA
42948470 GCGTGT-
66 GCGTGTC
42948476 CTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTC
1 CT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTC
42948541 AGCGTGTC
65 AGCGTGTC
* * *
42948549 CCGAGGCTCAACTCACCTCTCACAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCA
42948614 GCGTGTC
66 GCGTGTC
*
42948621 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCA
42948686 GCGTGTC
66 GCGTGTC
* * * *
42948693 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTTATTTTTTTTTTGAAAAACAAAAATTGAAAAT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-----TTTTTG-AAAACAGAAATTGAAATT
*
42948758 ACCTCAGCATGTC
60 ACCTCAGCGTGTC
* ** * * *
42948771 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAAAAGAAATTGAAATTACCTCA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCA
42948836 GCGTGTC
66 GCGTGTC
* ** *
42948843 CTAAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAACAACAGAAATTGAAAATTAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAA-AACAGAAATTG-AAATTAC
42948908 CTCAGCGTGTC
62 CTCAGCGTGTC
* *
42948919 CTGGGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAACATAAATTGAAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-A--TTTTTG-AAAACAGAAATTGAAA
42948980 AGCAGAAATT
Statistics
Matches: 583, Mismatches: 49, Indels: 32
0.88 0.07 0.05
Matches are distributed among these distances:
71 1 0.00
72 331 0.57
73 38 0.07
74 6 0.01
75 32 0.05
76 61 0.10
77 54 0.09
78 60 0.10
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (72 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCA
GCGTGTC
Found at i:42948811 original size:150 final size:145
Alignment explanation
Indices: 42948255--42949893 Score: 1670
Period size: 150 Copynumber: 10.9 Consensus size: 145
42948245 AGTGTGTGAT
* *
42948255 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAA-ACAGAAATTGAAATTACC
** * *
42948320 TCAGCATGTGAACCAAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAAT
63 TCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAAT
* *
42948385 TGAAAATACCTCAACGTGTC
126 TGAAATTACCTCAGCGTGTC
* ** *
42948405 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCA
*
42948470 GCGTGTCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAAATTGAAA
66 GCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAA
42948534 TTACCTCAGCGTGTC
131 TTACCTCAGCGTGTC
* * *
42948549 CCGAGGCTCAACTCACCTCTCACAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCA
42948614 GCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAAATTGAAA
66 GCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAA
42948678 TTACCTCAGCGTGTC
131 TTACCTCAGCGTGTC
* * * *
42948693 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTTATTTTTTTTTTGAAAAACAAAAATTGAAAAT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-----TTTTTG-AAAACAGAAATTGAAATT
* ** ** * * *
42948758 ACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA-ATTTTGAAAAAAGAAA
60 ACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAA
42948822 TTGAAATTACCTCAGCGTGTC
125 TTGAAATTACCTCAGCGTGTC
* ** *
42948843 CTAAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAACAACAGAAATTGAAAATTAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAA-AACAGAAATTG-AAATTAC
* *
42948908 CTCAGCGTGTCCTGGGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAACATAA
62 CTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG-A----TTT--------T--
*
42948973 ATTGAAAAGCAGAAATTGAAATTACCTCAACGTG-C
112 -TTGAAAA-CAGAAATTGAAATTACCTCAGCGTGTC
42949008 CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCT
1 C-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAACAGAAATTGAAATTACCT
* ** *
42949073 CAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAGTTGATTTTTTGAAAA-A-AAGATTG
64 CAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAA-ATTG
*
42949136 AAACACAAAAATTGACAATACATCAGCGTGCC
128 --------AAATT-AC----C-TCAGCGTGTC
*
42949168 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCA
* *
42949233 GCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAAACAAAAAT
66 GCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTTG-AAAACAGAAAT
* *
42949298 TGAAAATACCTCAGCATGTC
126 TGAAATTACCTCAGCGTGTC
* ** *
42949318 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCA
* * ** *
42949383 GTGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAACAACAGAAATTG
66 GCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGAA-AACAGAAATTG
*
42949448 AAAATTACCTCAGTGTGTC
128 -AAATTACCTCAGCGTGTC
*
42949467 CTGAGGCTCAACTCACCTCTCGC-A-AT--G-TGA-----G----CAGAAATTGAAAATACCTCA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCA
* ** * * * * *
42949518 ACGTGTCTTGAGGCTTAACTCACCTCTAGCAGTATGAGTTG-GTTTTTGAAAA-ATAAATTGAAA
66 GCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAA
* *
42949581 ATACCTCAGCGTGCC
131 TTACCTCAGCGTGTC
*
42949596 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACATAAATTGAAATTACCTC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAACAGAAATTGAAATTACCTC
*
42949661 AGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTTGAAAGACAG
65 AGCGTGT--CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-----TTTTTTGAAA-ACAG
* *
42949726 AAATTGAAAATACCTCAACGTGTC
122 AAATTGAAATTACCTCAGCGTGTC
* * *
42949750 TTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTGCAACATAAATTAAAACACAAAAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG------------AAA-ACAGAAA
** *
42949815 TTGACAA-TACCTCAGCGTACCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGA-TTTTTGA
52 TTGA-AATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-
*
42949878 AAAACATAAATTGAAA
115 AAAACAGAAATTGAAA
42949894 AATGGAAATC
Statistics
Matches: 1276, Mismatches: 119, Indels: 179
0.81 0.08 0.11
Matches are distributed among these distances:
129 38 0.03
130 8 0.01
131 4 0.00
132 7 0.01
133 1 0.00
134 3 0.00
135 52 0.04
139 2 0.00
144 234 0.18
145 41 0.03
146 33 0.03
147 50 0.04
148 72 0.06
149 41 0.03
150 260 0.20
151 1 0.00
152 9 0.01
153 6 0.00
154 59 0.05
155 8 0.01
156 4 0.00
158 64 0.05
159 65 0.05
160 5 0.00
162 9 0.01
163 52 0.04
164 22 0.02
165 46 0.04
166 56 0.04
167 22 0.02
168 2 0.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (145 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCA
GCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAA
TTACCTCAGCGTGTC
Found at i:42948979 original size:14 final size:14
Alignment explanation
Indices: 42948960--42948993 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
42948950 TTGAATTTTT
*
42948960 TTGAAAAACATAAA
1 TTGAAAAACAGAAA
*
42948974 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
42948988 TTGAAA
1 TTGAAA
42948994 TTACCTCAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.59, C:0.06, G:0.15, T:0.21
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:42949261 original size:72 final size:73
Alignment explanation
Indices: 42949133--42949497 Score: 439
Period size: 72 Copynumber: 4.9 Consensus size: 73
42949123 GAAAAAAAGA
* * * *
42949133 TTGAAACACAAAAATTGACAA-TACATCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAA-ACAGAAATTGA-AATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
42949197 AGTTGA-TTT
64 AGTTGATTTT
* *
42949206 TTGAAAACAGAAATTGAAATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
42949271 TTGATTTTTTTT
66 TTGA----TTTT
* * * * **
42949283 TTGAAAAACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
42949348 GTTGA-ATT
65 GTTGATTTT
* **
42949356 TTGAAAACAGAAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
42949421 TTGATTTTTT
66 TTGA--TTTT
* * *
42949431 TTTAACAACAGAAATTGAAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATGTG
1 TTGAA-AACAGAAATTG-AAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
42949496 AG
64 AG
42949498 CAGAAATTGA
Statistics
Matches: 259, Mismatches: 21, Indels: 20
0.86 0.07 0.07
Matches are distributed among these distances:
71 2 0.01
72 117 0.45
73 11 0.04
75 6 0.02
76 11 0.04
77 52 0.20
78 60 0.23
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.30
Consensus pattern (73 bp):
TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTT
Found at i:42949625 original size:71 final size:73
Alignment explanation
Indices: 42949501--42949806 Score: 361
Period size: 71 Copynumber: 4.1 Consensus size: 73
42949491 ATGTGAGCAG
* * * * *
42949501 AAATTGAAAATACCTCAACGTGTCTTGAGGCTTAACTCACCTCTAGCAGTATGAGTTG-GTTTTT
1 AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGTTTTTTT
42949565 GAAAA-AT
66 GAAAACAT
* * *
42949572 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTT
1 AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGTTTTTTT
42949636 GACAAACAT
66 GA-AAACAT
* *
42949645 AAATTGAAATTACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAACGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-----
*
42949710 TTTTTTTGAAAGACAG
59 TTTTTTTGAAA-ACAT
* * *
42949726 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGTTTTTTT
*
42949791 G-CAACAT
66 GAAAACAT
42949798 AAATT-AAAA
1 AAATTGAAAA
42949807 CACAAAAATT
Statistics
Matches: 206, Mismatches: 18, Indels: 22
0.84 0.07 0.09
Matches are distributed among these distances:
71 63 0.31
72 11 0.05
73 24 0.12
74 7 0.03
75 35 0.17
79 33 0.16
80 2 0.01
81 31 0.15
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (73 bp):
AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGTTTTTTT
GAAAACAT
Found at i:42950859 original size:12 final size:12
Alignment explanation
Indices: 42950834--42950875 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
42950824 GATTCCTCTC
*
42950834 TCTTTTTCCTTTT
1 TCTTTTTTC-TTT
42950847 TCTTTTTTCTTT
1 TCTTTTTTCTTT
*
42950859 TCTTTTCTCTTT
1 TCTTTTTTCTTT
42950871 T-TTTT
1 TCTTTT
42950876 AAGATGCCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 4 0.15
12 15 0.56
13 8 0.30
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (12 bp):
TCTTTTTTCTTT
Found at i:42950869 original size:19 final size:19
Alignment explanation
Indices: 42950837--42950873 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
42950827 TCCTCTCTCT
42950837 TTTTCCTTTTTCTTTTTTC
1 TTTTCCTTTTTCTTTTTTC
42950856 TTTT-CTTTTCTCTTTTTT
1 TTTTCCTTTT-TCTTTTTT
42950874 TTAAGATGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTTCCTTTTTCTTTTTTC
Found at i:42960131 original size:17 final size:17
Alignment explanation
Indices: 42960109--42960154 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
42960099 GAAAAATAAG
* *
42960109 AATTTTTTAAACACGGA
1 AATTTTTAAAACACGAA
*
42960126 AATTTTGAAAACACGAA
1 AATTTTTAAAACACGAA
*
42960143 AATTTTTGAAAC
1 AATTTTTAAAAC
42960155 CTGAATTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.33
Consensus pattern (17 bp):
AATTTTTAAAACACGAA
Found at i:42960779 original size:16 final size:17
Alignment explanation
Indices: 42960758--42960790 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
42960748 TTAGGAAACG
42960758 TACATAA-AAAAATATA
1 TACATAATAAAAATATA
*
42960774 TACATAATATAAATATA
1 TACATAATAAAAATATA
42960791 ATATATACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (17 bp):
TACATAATAAAAATATA
Found at i:42961334 original size:11 final size:11
Alignment explanation
Indices: 42961300--42961341 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
42961290 AAATCATTTT
42961300 GAAGAGAGAAA
1 GAAGAGAGAAA
* *
42961311 GAA-AAAAAAA
1 GAAGAGAGAAA
*
42961321 GAAGGGAGAAA
1 GAAGAGAGAAA
42961332 GAAGAGAGAA
1 GAAGAGAGAA
42961342 GGGAGGGGGG
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAAA
Found at i:42961816 original size:21 final size:20
Alignment explanation
Indices: 42961788--42961844 Score: 96
Period size: 21 Copynumber: 2.8 Consensus size: 20
42961778 AGGGTTTCTT
42961788 GGTTTTTTTTGGGGGGGTTA
1 GGTTTTTTTTGGGGGGGTTA
42961808 GGTTTTTTTTGGGGGGGGTTA
1 GGTTTTTTTT-GGGGGGGTTA
*
42961829 GGTTTTTTGTGGGGGG
1 GGTTTTTTTTGGGGGG
42961845 CTTAATGGGC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
20 16 0.46
21 19 0.54
ACGTcount: A:0.04, C:0.00, G:0.49, T:0.47
Consensus pattern (20 bp):
GGTTTTTTTTGGGGGGGTTA
Found at i:42968620 original size:21 final size:22
Alignment explanation
Indices: 42968592--42968641 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
42968582 ATTTTTTTTC
42968592 TATT-TTTTGAATTTTT-GAAT
1 TATTATTTTGAATTTTTAGAAT
* *
42968612 TATTATTTTTAATTTTTAGATT
1 TATTATTTTGAATTTTTAGAAT
42968634 TA-TATTTT
1 TATTATTTT
42968642 TAAAAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 4 0.15
21 17 0.65
22 5 0.19
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (22 bp):
TATTATTTTGAATTTTTAGAAT
Found at i:42968628 original size:22 final size:20
Alignment explanation
Indices: 42968595--42968644 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
42968585 TTTTTTCTAT
*
42968595 TTTTTGAATTTTTGAATTATTA
1 TTTTT-AATTTTAGAATTA-TA
*
42968617 TTTTTAATTTTTAGATTTATA
1 TTTTTAA-TTTTAGAATTATA
42968638 TTTTTAA
1 TTTTTAA
42968645 AAAAAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 11 0.44
22 14 0.56
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (20 bp):
TTTTTAATTTTAGAATTATA
Found at i:42968795 original size:29 final size:30
Alignment explanation
Indices: 42968760--42968820 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
42968750 TTTTCAATTT
*
42968760 TTATATTTAT-TATTTTGAAATTTTA-AAAA
1 TTATATTTATATATTTAG-AATTTTATAAAA
42968789 TTATATTTATATATTTAGAATTTTATAAAA
1 TTATATTTATATATTTAGAATTTTATAAAA
42968819 TT
1 TT
42968821 TTTAAAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 17 0.59
30 12 0.41
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (30 bp):
TTATATTTATATATTTAGAATTTTATAAAA
Found at i:42973572 original size:61 final size:62
Alignment explanation
Indices: 42973447--42973573 Score: 150
Period size: 61 Copynumber: 2.1 Consensus size: 62
42973437 TTCTTCATCT
* * * ** * * *
42973447 TTTTTTAAATACTTAATATTCAATTTCGAATCTTGTATGATAAGTAATATATTAGTTTAGTA
1 TTTTTTAAAGACTTAATACTCAATTTCGAATCTTCTACAATAAGTAAGATAATAATTTAGTA
*
42973509 TTTTTTAAGGACTTAATACTCAATTT-GAATCTTCTACAATAAGTAAGATAATAATTT-GATA
1 TTTTTTAAAGACTTAATACTCAATTTCGAATCTTCTACAATAAGTAAGATAATAATTTAG-TA
42973570 TTTT
1 TTTT
42973574 GAATTTTTTT
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
60 1 0.02
61 31 0.56
62 23 0.42
ACGTcount: A:0.36, C:0.08, G:0.09, T:0.46
Consensus pattern (62 bp):
TTTTTTAAAGACTTAATACTCAATTTCGAATCTTCTACAATAAGTAAGATAATAATTTAGTA
Found at i:42973775 original size:18 final size:18
Alignment explanation
Indices: 42973729--42973784 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
42973719 ACAATAAAAG
*
42973729 AAAAA-ATAAAAAGATAT
1 AAAAATATAAAAAAATAT
* *
42973746 AAAAATAAAAAAAAATTT
1 AAAAATATAAAAAAATAT
* *
42973764 AAAAATTTAAAAAATTAT
1 AAAAATATAAAAAAATAT
42973782 AAA
1 AAA
42973785 CAATTGAAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 5 0.16
18 26 0.84
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (18 bp):
AAAAATATAAAAAAATAT
Found at i:43003077 original size:71 final size:71
Alignment explanation
Indices: 43002961--43003105 Score: 265
Period size: 71 Copynumber: 2.0 Consensus size: 71
43002951 GTGTGTGATT
43002961 TAAACTAGCTTCGGCTACTTGAGGCACTAAGTGTGCGATACCAACTTGGTTTCGGGTAATTGAGA
1 TAAACTAGCTTCGGCTACTTGAGGCACTAAGTGTGCGATACCAACTTGGTTTCGGGTAATTGAGA
43003026 TGGCAC
66 TGGCAC
*
43003032 TAAACTAGCTTCGGCTACTCT-AGGCACTAAGTGTGCGATACCAACTTGGTTTCGGGTAATTGGG
1 TAAACTAGCTTCGGCTACT-TGAGGCACTAAGTGTGCGATACCAACTTGGTTTCGGGTAATTGAG
43003096 ATGGCAC
65 ATGGCAC
43003103 TAA
1 TAA
43003106 GTGTATGGAA
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
71 71 0.99
72 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (71 bp):
TAAACTAGCTTCGGCTACTTGAGGCACTAAGTGTGCGATACCAACTTGGTTTCGGGTAATTGAGA
TGGCAC
Found at i:43010921 original size:28 final size:29
Alignment explanation
Indices: 43010881--43010957 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 29
43010871 AAGATCAGGG
* *
43010881 TTGCTCACGCAAGTTGACA-GTTATGAAT
1 TTGCTCACACAAGATGACATGTTATGAAT
* *
43010909 TTGCTCACACAAGCT-ACAATTTTATGAAT
1 TTGCTCACACAAGATGAC-ATGTTATGAAT
*
43010938 TTTCTCACACAAGATGACAT
1 TTGCTCACACAAGATGACAT
43010958 CGTAATCAGT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
27 2 0.05
28 14 0.34
29 23 0.56
30 2 0.05
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.32
Consensus pattern (29 bp):
TTGCTCACACAAGATGACATGTTATGAAT
Found at i:43012514 original size:5 final size:5
Alignment explanation
Indices: 43012506--43012533 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
43012496 CTTCTCTTCC
43012506 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
43012534 TTCTCTCCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTCT
Found at i:43013652 original size:28 final size:28
Alignment explanation
Indices: 43013615--43013675 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
43013605 TACTAGAATA
*
43013615 CCCTATGTATGCAAAATTACCATTATAC
1 CCCTATGTATGCAAAATGACCATTATAC
*
43013643 CCCTATGTATGCAAAATGACCTTTATAC
1 CCCTATGTATGCAAAATGACCATTATAC
43013671 CCCTA
1 CCCTA
43013676 GGGTTAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
CCCTATGTATGCAAAATGACCATTATAC
Found at i:43013839 original size:27 final size:28
Alignment explanation
Indices: 43013781--43013870 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
43013771 AGGAAGGGTC
*
43013781 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
43013809 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
43013836 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
43013865 CTGGTG
1 CTGGTG
43013871 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:43013881 original size:29 final size:28
Alignment explanation
Indices: 43013791--43013881 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
43013781 CTGGTGGCTA
* * *
43013791 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
43013819 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
43013846 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
43013875 TGTCACA
1 TGCCACA
43013882 TTTTCTGTAG
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:43014360 original size:19 final size:19
Alignment explanation
Indices: 43014336--43014374 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
43014326 TTAATTATTT
* *
43014336 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
43014355 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
43014374 T
1 T
43014375 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:43014938 original size:11 final size:10
Alignment explanation
Indices: 43014910--43014943 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
43014900 AGCTTGTAAG
43014910 TATTCTGAAT
1 TATTCTGAAT
*
43014920 TTTTCTGAAT
1 TATTCTGAAT
43014930 ATATTCTGAAT
1 -TATTCTGAAT
43014941 TAT
1 TAT
43014944 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:43020346 original size:5 final size:5
Alignment explanation
Indices: 43020338--43020365 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
43020328 CTTCTCTTCC
43020338 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
43020366 TTCTCTCCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTCT
Found at i:43021374 original size:28 final size:28
Alignment explanation
Indices: 43021342--43021402 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
43021332 ATTTACTAGA
*
43021342 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
43021370 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
43021398 ATACC
1 ATACC
43021403 TCTAGGGTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:43021552 original size:28 final size:27
Alignment explanation
Indices: 43021511--43021584 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
43021501 AGGAAGCGTC
43021511 CTGGTGGCTA-TGCCACAAATTATTTGTT
1 CTGGTGGC-ACTGCCACAAA-TATTTGTT
* **
43021539 CTGGTGGCCCTGCCACGTATATTTGTT
1 CTGGTGGCACTGCCACAAATATTTGTT
* *
43021566 CTAGTGGCACTGCTACAAA
1 CTGGTGGCACTGCCACAAA
43021585 ATATCTATAT
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
27 22 0.59
28 15 0.41
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATTTGTT
Found at i:43022090 original size:19 final size:19
Alignment explanation
Indices: 43022066--43022104 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
43022056 TTAATTATTT
* *
43022066 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
43022085 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
43022104 T
1 T
43022105 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:43022720 original size:11 final size:11
Alignment explanation
Indices: 43022704--43022740 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
43022694 TAAATAATTC
43022704 ATTAATCCTTA
1 ATTAATCCTTA
43022715 ATTAAT-C-TA
1 ATTAATCCTTA
*
43022724 ATTAATCTTTA
1 ATTAATCCTTA
43022735 ATTAAT
1 ATTAAT
43022741 TAATCTTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
9 8 0.35
10 1 0.04
11 14 0.61
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.49
Consensus pattern (11 bp):
ATTAATCCTTA
Found at i:43022729 original size:20 final size:19
Alignment explanation
Indices: 43022693--43022744 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 19
43022683 TATTTAAACT
* *
43022693 TTAAATAATTCATTAATCC
1 TTAATTAATTAATTAATCC
*
43022712 TTAATTAATCTAATTAATCT
1 TTAATTAAT-TAATTAATCC
43022732 TTAATTAATTAAT
1 TTAATTAATTAAT
43022745 CTTAACCTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (19 bp):
TTAATTAATTAATTAATCC
Found at i:43022742 original size:15 final size:16
Alignment explanation
Indices: 43022716--43022747 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
43022706 TAATCCTTAA
43022716 TTAATCTAATTAATCT
1 TTAATCTAATTAATCT
43022732 TTAAT-TAATTAATCT
1 TTAATCTAATTAATCT
43022747 T
1 T
43022748 AACCTTAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (16 bp):
TTAATCTAATTAATCT
Found at i:43026077 original size:12 final size:12
Alignment explanation
Indices: 43026060--43026086 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
43026050 ATAAGTAGAT
43026060 ATTAATGATTAA
1 ATTAATGATTAA
43026072 ATTAATGATTAA
1 ATTAATGATTAA
43026084 ATT
1 ATT
43026087 CTTTCATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (12 bp):
ATTAATGATTAA
Found at i:43028692 original size:25 final size:25
Alignment explanation
Indices: 43028664--43028798 Score: 122
Period size: 25 Copynumber: 5.6 Consensus size: 25
43028654 TTACCGATTC
* *
43028664 TCAGCTCGAAAGAGCTTATCGATAT
1 TCAGCTCGTATGAGCTTATCGATAT
43028689 TCAGCTCGTATGAGCTTATCGATAT
1 TCAGCTCGTATGAGCTTATCGATAT
* *
43028714 TTAGCTCGTATGAGCTTACCG---T
1 TCAGCTCGTATGAGCTTATCGATAT
*
43028736 T-AGCTCGTCTGAGCTTATCGAT-T
1 TCAGCTCGTATGAGCTTATCGATAT
* * * *
43028759 ACAGCTCGTAAGAGCATACCG--AT
1 TCAGCTCGTATGAGCTTATCGATAT
43028782 TCAAAGCTCGTATGAGC
1 TC--AGCTCGTATGAGC
43028799 ATACATGTAC
Statistics
Matches: 91, Mismatches: 13, Indels: 12
0.78 0.11 0.10
Matches are distributed among these distances:
21 17 0.19
22 2 0.02
23 3 0.03
24 15 0.16
25 54 0.59
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.30
Consensus pattern (25 bp):
TCAGCTCGTATGAGCTTATCGATAT
Found at i:43028750 original size:46 final size:45
Alignment explanation
Indices: 43028691--43028798 Score: 126
Period size: 46 Copynumber: 2.3 Consensus size: 45
43028681 ATCGATATTC
** * *
43028691 AGCTCGTATGAGCTTATCGATATTTAGCTCGTATGAGCTTACCGTT
1 AGCTCGTATGAGCTTATCGAT-TACAGCTCGTAAGAGCATACCGTT
*
43028737 AGCTCGTCTGAGCTTATCGATTACAGCTCGTAAGAGCATACCGATT
1 AGCTCGTATGAGCTTATCGATTACAGCTCGTAAGAGCATACCG-TT
43028783 CAAAGCTCGTATGAGC
1 ---AGCTCGTATGAGC
43028799 ATACATGTAC
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
45 18 0.35
46 22 0.42
49 12 0.23
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (45 bp):
AGCTCGTATGAGCTTATCGATTACAGCTCGTAAGAGCATACCGTT
Found at i:43037237 original size:40 final size:40
Alignment explanation
Indices: 43037157--43037302 Score: 240
Period size: 40 Copynumber: 3.7 Consensus size: 40
43037147 TTTCCAAACC
* * * *
43037157 CAAATACCTTCGGGATTTAG-CCGGATATAGCAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
43037196 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
43037236 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
*
43037276 CAAATGCCTTTGGGACTTAGCCCGGAT
1 CAAATGCCTTCGGGACTTAGCCCGGAT
43037303 CTTCTGAATA
Statistics
Matches: 101, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 18 0.18
40 83 0.82
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:43039813 original size:18 final size:18
Alignment explanation
Indices: 43039789--43039829 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
43039779 ATACTTACTT
*
43039789 CTTACTATTCACGCATTC
1 CTTACTATTCACACATTC
*
43039807 TTTACTATTCACACATTC
1 CTTACTATTCACACATTC
43039825 CTTAC
1 CTTAC
43039830 AGACTTACTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.32, G:0.02, T:0.41
Consensus pattern (18 bp):
CTTACTATTCACACATTC
Found at i:43050398 original size:47 final size:47
Alignment explanation
Indices: 43050339--43050809 Score: 798
Period size: 47 Copynumber: 9.9 Consensus size: 47
43050329 TAGTATGGCG
* *
43050339 TAATGACCGATGTAATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
43050386 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
43050433 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
43050482 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
43050529 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
43050576 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
*
43050625 TAATGGCTGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
43050672 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
43050719 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * *
43050766 GAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
43050810 TCCCGAAGGG
Statistics
Matches: 404, Mismatches: 16, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
47 312 0.77
49 92 0.23
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:43050597 original size:143 final size:143
Alignment explanation
Indices: 43050339--43050809 Score: 829
Period size: 143 Copynumber: 3.3 Consensus size: 143
43050329 TAGTATGGCG
* *
43050339 TAATGACCGATGTAATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
43050404 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
66 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
43050469 ATGTGATAAGGCC
131 ATGTGATAGGGCC
43050482 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
43050547 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
66 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
43050612 ATGTGATAGGGCC
131 ATGTGATAGGGCC
*
43050625 TAATGGCTGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
43050690 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
66 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
43050753 ATGTGACAGGGCC
131 ATGTGATAGGGCC
* * * * * *
43050766 GAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
43050810 TCCCGAAGGG
Statistics
Matches: 316, Mismatches: 12, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
141 54 0.17
143 262 0.83
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (143 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
ATGTGATAGGGCC
Found at i:43050668 original size:190 final size:191
Alignment explanation
Indices: 43050339--43050809 Score: 799
Period size: 190 Copynumber: 2.5 Consensus size: 191
43050329 TAGTATGGCG
* *
43050339 TAATGACCGATGTAATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
43050404 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
66 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATAT
43050467 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
130 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
43050529 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
43050594 ATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCTGATGTGATGAATGTGAAAGTG-TATA
66 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATA
43050658 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
131 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * * *
43050719 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
43050784 ATGTGAAAGTGTATA-A-ATGTGATAAG
66 ATGTGAAAGTGTATATATATGTGATAAG
43050810 TCCCGAAGGG
Statistics
Matches: 267, Mismatches: 12, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
188 9 0.03
189 1 0.00
190 212 0.79
192 45 0.17
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (191 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATA
TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:43050984 original size:37 final size:37
Alignment explanation
Indices: 43050928--43051006 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
43050918 CCGAGCTCTA
* * * *
43050928 AAGACTCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
43050965 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
43051002 AAGAC
1 AAGAC
43051007 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:43052454 original size:121 final size:120
Alignment explanation
Indices: 43052223--43052489 Score: 421
Period size: 121 Copynumber: 2.2 Consensus size: 120
43052213 GAGAATTGAG
43052223 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
* * *
43052288 AGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
66 AAGAGCATTCGTGCTAGTAATATATCCGGGCTAAGACCCGAAGAGCATTCGTGCT
*
43052343 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATGTATATCC-GGCTAAGTTC
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGA--TATATCCGGGCTAAGTCC
*
43052407 CGAAGAGCATTCGTGCTAGTAATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCT
64 CGAAGAGCATTCGTGCTAGTAATATATCCGGGCTAAGACC-CGAAGAGCATTCGTGCT
* * *
43052464 GGTGTTATATCCGGGCTAGGTCCCGA
1 AGTGATATATCCGGGCTAAGTCCCGA
43052490 AGAGTAATCA
Statistics
Matches: 136, Mismatches: 8, Indels: 5
0.91 0.05 0.03
Matches are distributed among these distances:
120 47 0.35
121 82 0.60
122 7 0.05
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (120 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
AAGAGCATTCGTGCTAGTAATATATCCGGGCTAAGACCCGAAGAGCATTCGTGCT
Found at i:43052507 original size:40 final size:40
Alignment explanation
Indices: 43052223--43052493 Score: 411
Period size: 40 Copynumber: 6.8 Consensus size: 40
43052213 GAGAATTGAG
*
43052223 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
43052263 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
43052303 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
43052343 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
43052383 AGTGATGTATATCC-GGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGA--TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
43052424 AGTAATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCT
* * *
43052464 GGTGTTATATCCGGGCTAGGTCCCGAAGAG
1 AGTGATATATCCGGGCTAAGTCCCGAAGAG
43052494 TAATCATGCT
Statistics
Matches: 212, Mismatches: 14, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
39 8 0.04
40 166 0.78
41 31 0.15
42 7 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:43054588 original size:22 final size:23
Alignment explanation
Indices: 43054545--43054597 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 23
43054535 GCATTCGGCC
*
43054545 ATGGTAG-AAAGTAGATGT-AAA
1 ATGGTAGTAAAGTAGAAGTAAAA
43054566 ATGGTAGTAAAGT-GAAGTGAAAA
1 ATGGTAGTAAAGTAGAAGT-AAAA
*
43054589 ATGTTAGTA
1 ATGGTAGTA
43054598 TTTGATTACT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 11 0.41
22 5 0.19
23 11 0.41
ACGTcount: A:0.45, C:0.00, G:0.28, T:0.26
Consensus pattern (23 bp):
ATGGTAGTAAAGTAGAAGTAAAA
Found at i:43055934 original size:25 final size:25
Alignment explanation
Indices: 43055906--43055984 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
43055896 GTAATGACCG
43055906 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
43055931 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
43055953 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
43055978 ATGTGAT
1 ATGTGAT
43055985 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:43055956 original size:47 final size:47
Alignment explanation
Indices: 43055897--43056185 Score: 443
Period size: 47 Copynumber: 5.9 Consensus size: 47
43055887 TAGTATGGCG
*
43055897 TAATGACCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
43055944 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
43055991 TAATGGCCGATGTGATGACCGATGTGATGAATGTCAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGAT----GA----ATG--TG--AAAGTGTATATATGTGATAAGGCC
*
43056050 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTTATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
43056097 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
43056144 TAATGGCCGATGTGATGAATGTGAAAGTGTATATAATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATAT-ATGTGAT
43056186 GAATGTGAAA
Statistics
Matches: 226, Mismatches: 3, Indels: 25
0.89 0.01 0.10
Matches are distributed among these distances:
47 165 0.73
48 7 0.03
49 2 0.01
51 5 0.02
55 5 0.02
57 2 0.01
59 40 0.18
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:43056084 original size:106 final size:105
Alignment explanation
Indices: 43055899--43056185 Score: 461
Period size: 106 Copynumber: 2.8 Consensus size: 105
43055889 GTATGGCGTA
43055899 ATGACCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 ATGACCGATGTGATGAATGT-AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
43055964 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
65 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
43056005 ATGACCGATGTGATGAATGTCAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 ATGACCGATGTGATGAATGT-AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
43056070 GTGAAAGTGTATATATGTTATAAGGCCTAATGGCCGATGTG
65 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
43056111 AT----GA----ATG--TG-AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
1 ATGACCGATGTGATGAATGTAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
43056165 TGAAAGTGTATATAATGTGAT
66 TGAAAGTGTATAT-ATGTGAT
43056186 GAATGTGAAA
Statistics
Matches: 177, Mismatches: 3, Indels: 13
0.92 0.02 0.07
Matches are distributed among these distances:
94 58 0.33
95 6 0.03
96 2 0.01
98 3 0.02
102 2 0.01
106 106 0.60
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (105 bp):
ATGACCGATGTGATGAATGTAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
Found at i:43056189 original size:26 final size:27
Alignment explanation
Indices: 43056153--43056212 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 27
43056143 CTAATGGCCG
43056153 ATGTGATGAATGTGAAAGTGTATATA-
1 ATGTGATGAATGTGAAAGTGTATATAT
43056179 ATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATGAATGTGAAAGTGTATATAT
43056206 ATGTGAT
1 ATGTGAT
43056213 AAGGCCTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 26 0.79
27 7 0.21
ACGTcount: A:0.37, C:0.00, G:0.27, T:0.37
Consensus pattern (27 bp):
ATGTGATGAATGTGAAAGTGTATATAT
Found at i:43056226 original size:169 final size:166
Alignment explanation
Indices: 43056012--43056353 Score: 630
Period size: 169 Copynumber: 2.0 Consensus size: 166
43056002 GTGATGACCG
43056012 ATGTGATGAATGTCAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTCAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
43056077 TGTATATATGTTATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
66 TGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
43056142 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
131 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
43056178 AATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 -ATGTGATGAATGTCAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
43056243 AAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATA
63 AAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATA
43056308 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
128 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
43056347 ATGTGAT
1 ATGTGAT
43056354 AAGGCCTAAT
Statistics
Matches: 170, Mismatches: 3, Indels: 3
0.97 0.02 0.02
Matches are distributed among these distances:
167 19 0.11
168 7 0.04
169 144 0.85
ACGTcount: A:0.33, C:0.07, G:0.28, T:0.31
Consensus pattern (166 bp):
ATGTGATGAATGTCAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
CCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
Found at i:43056227 original size:75 final size:72
Alignment explanation
Indices: 43056106--43056399 Score: 285
Period size: 75 Copynumber: 4.1 Consensus size: 72
43056096 CTAATGGCCG
43056106 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
43056171 TGTATAT
66 TGTATAT
43056178 AATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 -ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
43056243 AAGTGTATAT
63 AAGTGTATAT
* *** *** * *** **** * ***
43056253 ATGTGAT-AAGGCCTAA-TGGCCA-ATGTGATGAATGTGAAAGTGTATATATGTGAT-AAGGCCT
1 ATGTGATGAATGTGAAAGTGTATATATGTGAT-AAGGCCTAA-TG-GCCGATGTGATGAATGTGA
****
43056314 AA-TG-GCCG
63 AAGTGTATAT
43056322 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
43056387 TGTATAT
66 TGTATAT
43056394 ATGTGA
1 ATGTGA
43056400 CAGGGCCGAG
Statistics
Matches: 164, Mismatches: 46, Indels: 23
0.70 0.20 0.10
Matches are distributed among these distances:
69 21 0.13
70 20 0.12
71 17 0.10
72 22 0.13
73 25 0.15
74 7 0.04
75 52 0.32
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.31
Consensus pattern (72 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATAT
Found at i:43056270 original size:47 final size:47
Alignment explanation
Indices: 43056179--43056450 Score: 445
Period size: 47 Copynumber: 5.7 Consensus size: 47
43056169 AGTGTATATA
43056179 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
43056228 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
43056275 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
43056322 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
43056369 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
43056416 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
43056451 TCCCGAAGGG
Statistics
Matches: 211, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
47 191 0.91
49 20 0.09
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:43056337 original size:216 final size:215
Alignment explanation
Indices: 43056009--43056399 Score: 746
Period size: 216 Copynumber: 1.8 Consensus size: 215
43055999 GATGTGATGA
*
43056009 CCGATGTGATGAATGTCAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 CCGATGTGATGAATGTCAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGA
*
43056074 AAGTGTATATATGTTATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
66 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
43056139 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAATGTGATGAATGTGAAAGTGTATAT
131 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT-ATGTGATGAATGTGAAAGTGTATAT
43056204 ATATGTGATAAGGCCTAATGG
195 ATATGTGATAAGGCCTAATGG
*
43056225 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGA
1 CCGATGTGATGAATGTCAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGA
43056290 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
66 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
43056355 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
131 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
43056400 CAGGGCCGAG
Statistics
Matches: 172, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
215 6 0.03
216 166 0.97
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.31
Consensus pattern (215 bp):
CCGATGTGATGAATGTCAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGA
AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAATGTGAAAGTGTATATA
TATGTGATAAGGCCTAATGG
Found at i:43056625 original size:37 final size:37
Alignment explanation
Indices: 43056569--43056647 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
43056559 CCGAGCTCTA
* * *
43056569 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
43056606 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
43056643 AAGAC
1 AAGAC
43056648 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:43064767 original size:22 final size:22
Alignment explanation
Indices: 43064739--43064815 Score: 136
Period size: 22 Copynumber: 3.5 Consensus size: 22
43064729 TACAAAGTTG
43064739 ATGTCGTGACACACCAGATCCT
1 ATGTCGTGACACACCAGATCCT
43064761 ATGTCGTGACACACCAGATCCT
1 ATGTCGTGACACACCAGATCCT
*
43064783 GTGTCGTGACACACCAGATCCT
1 ATGTCGTGACACACCAGATCCT
*
43064805 GTGTCGTGACA
1 ATGTCGTGACA
43064816 TCAAAGGTAG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 54 1.00
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (22 bp):
ATGTCGTGACACACCAGATCCT
Found at i:43067780 original size:5 final size:5
Alignment explanation
Indices: 43067767--43067796 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
43067757 GTATGATTGT
*
43067767 ATGAT ATGAC ATGAC ATGAC ATGAC ATGAC
1 ATGAC ATGAC ATGAC ATGAC ATGAC ATGAC
43067797 TGTATGATGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (5 bp):
ATGAC
Found at i:43074565 original size:32 final size:32
Alignment explanation
Indices: 43074524--43074586 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
43074514 AAAAAAATAC
43074524 TTTACTATTTCTAAGTTTACAATTCCACCATA
1 TTTACTATTTCTAAGTTTACAATTCCACCATA
43074556 TTTACTATTTCTAAGTTTACAATTCCACCAT
1 TTTACTATTTCTAAGTTTACAATTCCACCAT
43074587 TAAATATTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.30, C:0.22, G:0.03, T:0.44
Consensus pattern (32 bp):
TTTACTATTTCTAAGTTTACAATTCCACCATA
Found at i:43086809 original size:27 final size:28
Alignment explanation
Indices: 43086725--43086822 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
43086715 CATGAGATTG
* * * *
43086725 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
43086754 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
43086782 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
43086809 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
43086823 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:43086833 original size:27 final size:27
Alignment explanation
Indices: 43086753--43086835 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
43086743 TAAATTGTAC
* *
43086753 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
43086781 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
43086808 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
43086835 A
1 A
43086836 TTTTGAATCA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:43086836 original size:29 final size:27
Alignment explanation
Indices: 43086725--43086836 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
43086715 CATGAGATTG
** * *
43086725 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
43086754 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
43086782 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
43086809 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
43086837 TTTGAATCAC
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:43094089 original size:27 final size:28
Alignment explanation
Indices: 43094005--43094102 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
43093995 CATGAGATTG
* * * *
43094005 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
43094034 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
43094062 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
43094089 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
43094103 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:43094113 original size:27 final size:27
Alignment explanation
Indices: 43094033--43094115 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
43094023 TAAATTGTAC
* *
43094033 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
43094061 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
43094088 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
43094115 A
1 A
43094116 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:43094116 original size:29 final size:27
Alignment explanation
Indices: 43094005--43094116 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
43093995 CATGAGATTG
** * *
43094005 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
43094034 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
43094062 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
43094089 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
43094117 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:43108889 original size:23 final size:24
Alignment explanation
Indices: 43108848--43108895 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
43108838 TAATGGCCGA
*
43108848 TAGTGGTCCGACGGTGGTTGGTGG
1 TAGTGGTCCGACGGGGGTTGGTGG
43108872 TAGTGGT-CGACGGGGGTTGGTGG
1 TAGTGGTCCGACGGGGGTTGGTGG
43108895 T
1 T
43108896 GGCCCGAGGC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.08, C:0.10, G:0.52, T:0.29
Consensus pattern (24 bp):
TAGTGGTCCGACGGGGGTTGGTGG
Found at i:43110099 original size:15 final size:15
Alignment explanation
Indices: 43110088--43110121 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
43110078 TATTATTTTC
43110088 ATGTTAATTATTAAT
1 ATGTTAATTATTAAT
*
43110103 ATGTTAATTATTATT
1 ATGTTAATTATTAAT
43110118 ATGT
1 ATGT
43110122 AGTGGGTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (15 bp):
ATGTTAATTATTAAT
Found at i:43110573 original size:67 final size:67
Alignment explanation
Indices: 43110465--43110600 Score: 211
Period size: 67 Copynumber: 2.0 Consensus size: 67
43110455 CATGATTTTG
* *
43110465 TGCTAAAAATAAGCAACCAAATCACCTCCATTTCCACATATTGTGGTCGGCCAAGAAATGGAGAA
1 TGCTAAAAATAAGCAACCAAATCACCTCCACTTCCACATATTGTGGTCGGCCAAGAAATAGAGAA
43110530 GA
66 GA
* * *
43110532 TGCTATAAATTAGCAACCAAATCACCTTCC-CTTCCACATATTGTGGTCGGCCAAGCAATAGAGA
1 TGCTAAAAATAAGCAACCAAATCACC-TCCACTTCCACATATTGTGGTCGGCCAAGAAATAGAGA
43110596 AGA
65 AGA
43110599 TG
1 TG
43110601 GAGGGATTCC
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
67 60 0.95
68 3 0.05
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.23
Consensus pattern (67 bp):
TGCTAAAAATAAGCAACCAAATCACCTCCACTTCCACATATTGTGGTCGGCCAAGAAATAGAGAA
GA
Found at i:43117882 original size:163 final size:163
Alignment explanation
Indices: 43117612--43117938 Score: 496
Period size: 163 Copynumber: 2.0 Consensus size: 163
43117602 AGGTCTTTTC
* * *
43117612 CATATTATTTTTAGAAATTGATTTAATTTCAAAAAACCATAGAGAAAAATATTTTCGATTTACCT
1 CATATTATTTTTAGAAATTGATTTAACTTCAAAAAACCATAGACAAAAATATTTTAGATTTACCT
* *
43117677 CACTTGAAATTTCAGAACTCAATTTCAAGCCAAAATTCCAAAACTATCCTCGAAACTTATAGACC
66 CACTTGAAATTTCAGAACTCAATTTCAAGCCAAAAATCCAAAACTATCCTCAAAACTTATAGACC
* *
43117742 TAATTTCGAGATGTGACAAAGAGAACCAAGAAG
131 CAATTTCGAGATCTGACAAAGAGAACCAAGAAG
* * *
43117775 CATATTATTTTTATAAATTGATTTAACTTCAAAAACCCATAGACAAATATATTTTTAG-TTTACC
1 CATATTATTTTTAGAAATTGATTTAACTTCAAAAAACCATAGACAAAAATA-TTTTAGATTTACC
* * *
43117839 TCACTTTGAATTTTC-GAACTCAATTTCAATCCAAAAATCCAAAACTATCCTCAAAACTTCTAGA
65 TCAC-TTGAAATTTCAGAACTCAATTTCAAGCCAAAAATCCAAAACTATCCTCAAAACTTATAGA
*
43117903 CCCAATTTTGAGATCTGACAAAGAGAACCAAGAAG
129 CCCAATTTCGAGATCTGACAAAGAGAACCAAGAAG
43117938 C
1 C
43117939 CTAAAGACTT
Statistics
Matches: 148, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
163 134 0.91
164 14 0.09
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (163 bp):
CATATTATTTTTAGAAATTGATTTAACTTCAAAAAACCATAGACAAAAATATTTTAGATTTACCT
CACTTGAAATTTCAGAACTCAATTTCAAGCCAAAAATCCAAAACTATCCTCAAAACTTATAGACC
CAATTTCGAGATCTGACAAAGAGAACCAAGAAG
Found at i:43118830 original size:3 final size:3
Alignment explanation
Indices: 43118824--43118853 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
43118814 AAAAAAAAGA
43118824 AAG AAG AAG AAG AAG AAG AAG AAGG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AA-G AAG AA
43118854 AATCTATCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:43138164 original size:64 final size:64
Alignment explanation
Indices: 43138080--43138206 Score: 202
Period size: 64 Copynumber: 2.0 Consensus size: 64
43138070 TATTTGACGA
*
43138080 TTAGGTCCATTTCCCACTATTGTTGTA-CAGAGGTAAGTTCTTATCTAAATAATGCAATGTTTAG
1 TTAGGTCCATTTCCCACTATTGTTATATC-GAGGTAAGTTCTTATCTAAATAATGCAATGTTTAG
* * *
43138144 TTAGTTCCATTTCCTACTATTTTTATATCGAGGTAAGTTCTTATCTAAATAATGCAATGTTTA
1 TTAGGTCCATTTCCCACTATTGTTATATCGAGGTAAGTTCTTATCTAAATAATGCAATGTTTA
43138207 ATTATGTTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
64 57 0.98
65 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (64 bp):
TTAGGTCCATTTCCCACTATTGTTATATCGAGGTAAGTTCTTATCTAAATAATGCAATGTTTAG
Found at i:43138443 original size:42 final size:40
Alignment explanation
Indices: 43138351--43138475 Score: 133
Period size: 42 Copynumber: 3.0 Consensus size: 40
43138341 ACCGAGACTA
** *
43138351 TGTGTAAGACCATATCTGGGATATGGCATCATTATGAGACTT
1 TGTGTAAGACCATATCTGGGATATAACATCA-TACGAGA-TT
*
43138393 TGTATAAGACCATATCTGGGATATAACATCTATACGAGATT
1 TGTGTAAGACCATATCTGGGATATAACATC-ATACGAGATT
* * *
43138434 TCGTGTAAGACCATAGCTGGGCTATTAACATCAAAACGAGAT
1 T-GTGTAAGACCATATCTGGGATA-TAACATC-ATACGAGAT
43138476 CCCATATAAG
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
41 3 0.04
42 52 0.73
43 16 0.23
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.30
Consensus pattern (40 bp):
TGTGTAAGACCATATCTGGGATATAACATCATACGAGATT
Found at i:43138486 original size:43 final size:42
Alignment explanation
Indices: 43138395--43138501 Score: 106
Period size: 43 Copynumber: 2.5 Consensus size: 42
43138385 TGAGACTTTG
* * * ** *
43138395 TATAAGACCATATCTGGGATATAACATCTATACGAGATTTCG
1 TATAAGACCATAGCTGGGATATAACATCAAAACGAGATCCCA
* *
43138437 TGTAAGACCATAGCTGGGCTATTAACATCAAAACGAGATCCCA
1 TATAAGACCATAGCTGGGATA-TAACATCAAAACGAGATCCCA
* **
43138480 TATAAGATCATATTTGGGATAT
1 TATAAGACCATAGCTGGGATAT
43138502 GGCAATGGTG
Statistics
Matches: 51, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
42 19 0.37
43 32 0.63
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (42 bp):
TATAAGACCATAGCTGGGATATAACATCAAAACGAGATCCCA
Found at i:43141340 original size:40 final size:40
Alignment explanation
Indices: 43141285--43141466 Score: 305
Period size: 40 Copynumber: 4.6 Consensus size: 40
43141275 CATTCGAATG
43141285 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
43141325 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAATGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
43141365 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
43141405 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
*
43141445 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
43141467 TACTTGGGTT
Statistics
Matches: 135, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 14 0.10
40 118 0.87
41 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:43146774 original size:39 final size:40
Alignment explanation
Indices: 43146673--43146774 Score: 147
Period size: 40 Copynumber: 2.6 Consensus size: 40
43146663 TATTCGAATG
* *
43146673 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCGATTGACT
43146713 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAA-ATCCCGAAGGCATTTGTGCGA-TTGACT
43146753 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAATCCCGAAGG
43146775 TACTTGGGTT
Statistics
Matches: 57, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
38 1 0.02
39 14 0.25
40 39 0.68
41 3 0.05
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAATCCCGAAGGCATTTGTGCGATTGACT
Done.